Back to Multiple platform build/check report for BioC 3.20: simplified long |
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This page was generated on 2024-08-21 11:41 -0400 (Wed, 21 Aug 2024).
Hostname | OS | Arch (*) | R version | Installed pkgs |
---|---|---|---|---|
nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4703 |
palomino8 | Windows Server 2022 Datacenter | x64 | 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" | 4440 |
lconway | macOS 12.7.1 Monterey | x86_64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4472 |
kjohnson3 | macOS 13.6.5 Ventura | arm64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4421 |
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) | aarch64 | 4.4.1 (2024-06-14) -- "Race for Your Life" | 4414 |
Click on any hostname to see more info about the system (e.g. compilers) (*) as reported by 'uname -p', except on Windows and Mac OS X |
Package 771/2255 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
gDRutils 1.3.9 (landing page) Arkadiusz Gladki
| nebbiolo2 | Linux (Ubuntu 22.04.3 LTS) / x86_64 | OK | OK | OK | ![]() | ||||||||
palomino8 | Windows Server 2022 Datacenter / x64 | OK | OK | OK | OK | ![]() | ||||||||
lconway | macOS 12.7.1 Monterey / x86_64 | OK | OK | OK | OK | ![]() | ||||||||
kjohnson3 | macOS 13.6.5 Ventura / arm64 | OK | OK | OK | OK | ![]() | ||||||||
kunpeng2 | Linux (openEuler 22.03 LTS-SP1) / aarch64 | OK | OK | OK | ||||||||||
To the developers/maintainers of the gDRutils package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/gDRutils.git to reflect on this report. See Troubleshooting Build Report for more information. - Use the following Renviron settings to reproduce errors and warnings. - If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information. |
Package: gDRutils |
Version: 1.3.9 |
Command: F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:gDRutils.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings gDRutils_1.3.9.tar.gz |
StartedAt: 2024-08-21 01:00:24 -0400 (Wed, 21 Aug 2024) |
EndedAt: 2024-08-21 01:05:03 -0400 (Wed, 21 Aug 2024) |
EllapsedTime: 279.1 seconds |
RetCode: 0 |
Status: OK |
CheckDir: gDRutils.Rcheck |
Warnings: 0 |
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:gDRutils.install-out.txt --library=F:\biocbuild\bbs-3.20-bioc\R\library --no-vignettes --timings gDRutils_1.3.9.tar.gz ### ############################################################################## ############################################################################## * using log directory 'F:/biocbuild/bbs-3.20-bioc/meat/gDRutils.Rcheck' * using R version 4.4.1 (2024-06-14 ucrt) * using platform: x86_64-w64-mingw32 * R was compiled by gcc.exe (GCC) 13.2.0 GNU Fortran (GCC) 13.2.0 * running under: Windows Server 2022 x64 (build 20348) * using session charset: UTF-8 * using option '--no-vignettes' * checking for file 'gDRutils/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'gDRutils' version '1.3.9' * package encoding: UTF-8 * checking package namespace information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking if there is a namespace ... OK * checking for hidden files and directories ... OK * checking for portable file names ... OK * checking whether package 'gDRutils' can be installed ... OK * checking installed package size ... OK * checking package directory ... OK * checking 'build' directory ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking for left-over files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking code files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the package can be unloaded cleanly ... OK * checking whether the namespace can be loaded with stated dependencies ... OK * checking whether the namespace can be unloaded cleanly ... OK * checking dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd metadata ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking Rd contents ... OK * checking for unstated dependencies in examples ... OK * checking files in 'vignettes' ... OK * checking examples ... OK * checking for unstated dependencies in 'tests' ... OK * checking tests ... Running 'testthat.R' OK * checking for unstated dependencies in vignettes ... OK * checking package vignettes ... OK * checking running R code from vignettes ... SKIPPED * checking re-building of vignette outputs ... SKIPPED * checking PDF version of manual ... OK * DONE Status: OK
gDRutils.Rcheck/00install.out
############################################################################## ############################################################################## ### ### Running command: ### ### F:\biocbuild\bbs-3.20-bioc\R\bin\R.exe CMD INSTALL gDRutils ### ############################################################################## ############################################################################## * installing to library 'F:/biocbuild/bbs-3.20-bioc/R/library' * installing *source* package 'gDRutils' ... ** using staged installation ** R ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes ** testing if installed package can be loaded from temporary location ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (gDRutils)
gDRutils.Rcheck/tests/testthat.Rout
R version 4.4.1 (2024-06-14 ucrt) -- "Race for Your Life" Copyright (C) 2024 The R Foundation for Statistical Computing Platform: x86_64-w64-mingw32/x64 R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > library("gDRutils") > library("testthat") > > test_check("gDRutils") [ FAIL 0 | WARN 0 | SKIP 0 | PASS 640 ] > > proc.time() user system elapsed 56.90 1.96 74.00
gDRutils.Rcheck/gDRutils-Ex.timings
name | user | system | elapsed | |
MAEpply | 0.70 | 0.09 | 0.80 | |
SE_metadata | 0.05 | 0.00 | 0.05 | |
addClass | 0 | 0 | 0 | |
aggregate_assay | 1.23 | 0.05 | 1.28 | |
apply_bumpy_function | 1.88 | 0.14 | 2.01 | |
assert_choices | 0 | 0 | 0 | |
average_biological_replicates_dt | 0.04 | 0.00 | 0.05 | |
calc_sd | 0 | 0 | 0 | |
capVals | 0.31 | 0.05 | 0.36 | |
cap_xc50 | 0 | 0 | 0 | |
convert_colData_to_json | 0.08 | 0.00 | 0.08 | |
convert_combo_data_to_dt | 0.28 | 0.03 | 0.31 | |
convert_combo_field_to_assay | 0 | 0 | 0 | |
convert_mae_assay_to_dt | 0.08 | 0.00 | 0.08 | |
convert_mae_to_json | 0.03 | 0.00 | 0.03 | |
convert_metadata_to_json | 0.02 | 0.00 | 0.02 | |
convert_rowData_to_json | 0 | 0 | 0 | |
convert_se_assay_to_custom_dt | 0.51 | 0.05 | 0.57 | |
convert_se_assay_to_dt | 0.08 | 0.00 | 0.08 | |
convert_se_to_json | 0.03 | 0.00 | 0.03 | |
define_matrix_grid_positions | 0.08 | 0.00 | 0.08 | |
demote_fields | 1.13 | 0.06 | 1.19 | |
df_to_bm_assay | 0.2 | 0.0 | 0.2 | |
dot-set_invalid_fit_params | 0 | 0 | 0 | |
extend_normalization_type_name | 0 | 0 | 0 | |
fit_curves | 0.17 | 0.05 | 0.22 | |
flatten | 0 | 0 | 0 | |
gen_synthetic_data | 0.02 | 0.00 | 0.02 | |
geometric_mean | 0 | 0 | 0 | |
get_MAE_identifiers | 0 | 0 | 0 | |
get_additional_variables | 0.01 | 0.00 | 0.01 | |
get_assay_names | 0 | 0 | 0 | |
get_combo_assay_names | 0 | 0 | 0 | |
get_combo_base_assay_names | 0 | 0 | 0 | |
get_combo_excess_field_names | 0 | 0 | 0 | |
get_combo_score_assay_names | 0 | 0 | 0 | |
get_combo_score_field_names | 0.00 | 0.01 | 0.02 | |
get_default_identifiers | 0 | 0 | 0 | |
get_duplicated_rows | 0 | 0 | 0 | |
get_env_assay_names | 0 | 0 | 0 | |
get_expect_one_identifiers | 0 | 0 | 0 | |
get_experiment_groups | 0 | 0 | 0 | |
get_identifiers_dt | 0.00 | 0.02 | 0.01 | |
get_idfs_synonyms | 0 | 0 | 0 | |
get_isobologram_columns | 0.05 | 0.01 | 0.07 | |
get_non_empty_assays | 0.06 | 0.00 | 0.06 | |
get_required_identifiers | 0 | 0 | 0 | |
get_settings_from_json | 0 | 0 | 0 | |
get_supported_experiments | 0 | 0 | 0 | |
get_synthetic_data | 0.02 | 0.00 | 0.01 | |
get_testdata | 0.14 | 0.02 | 0.16 | |
get_testdata_codilution | 0.08 | 0.00 | 0.09 | |
get_testdata_combo | 0.26 | 0.03 | 0.32 | |
has_single_codrug_data | 0.08 | 0.00 | 0.07 | |
has_valid_codrug_data | 0.09 | 0.00 | 0.10 | |
headers | 0.04 | 0.00 | 0.03 | |
identifiers | 0 | 0 | 0 | |
identify_unique_se_metadata_fields | 0 | 0 | 0 | |
is_any_exp_empty | 0.04 | 0.00 | 0.05 | |
is_combo_data | 0.14 | 0.05 | 0.18 | |
is_exp_empty | 0.05 | 0.00 | 0.05 | |
is_mae_empty | 0.06 | 0.00 | 0.06 | |
logisticFit | 0.03 | 0.00 | 0.03 | |
loop | 0 | 0 | 0 | |
mcolData | 0.02 | 0.00 | 0.02 | |
merge_SE | 2.17 | 0.04 | 2.22 | |
merge_assay | 0.30 | 0.02 | 0.61 | |
merge_metadata | 0.01 | 0.00 | 0.08 | |
modifyData | 0.11 | 0.00 | 0.11 | |
mrowData | 0.02 | 0.00 | 0.01 | |
predict_conc_from_efficacy | 0 | 0 | 0 | |
predict_efficacy_from_conc | 0 | 0 | 0 | |
prettify_flat_metrics | 0.03 | 0.00 | 0.03 | |
promote_fields | 0.20 | 0.00 | 0.21 | |
refine_coldata | 0.02 | 0.00 | 0.01 | |
refine_rowdata | 0.05 | 0.00 | 0.05 | |
remove_codrug_data | 0.03 | 0.00 | 0.03 | |
rename_DFrame | 0 | 0 | 0 | |
rename_bumpy | 0.03 | 0.00 | 0.04 | |
round_concentration | 0 | 0 | 0 | |
set_constant_fit_params | 0 | 0 | 0 | |
set_unique_cl_names | 0.04 | 0.00 | 0.03 | |
set_unique_drug_names | 0.05 | 0.00 | 0.05 | |
set_unique_identifiers | 0.33 | 0.00 | 0.46 | |
shorten_normalization_type_name | 0 | 0 | 0 | |
split_SE_components | 0.06 | 0.00 | 0.07 | |
standardize_mae | 0.09 | 0.00 | 0.09 | |
standardize_se | 0.02 | 0.01 | 0.03 | |
update_env_idfs_from_mae | 0 | 0 | 0 | |
update_idfs_synonyms | 0 | 0 | 0 | |
validate_MAE | 0.07 | 0.00 | 0.06 | |
validate_SE | 0.03 | 0.00 | 0.03 | |
validate_identifiers | 0.00 | 0.02 | 0.02 | |
validate_json | 0 | 0 | 0 | |
validate_mae_with_schema | 0.23 | 0.04 | 1.11 | |
validate_se_assay_name | 0.02 | 0.00 | 0.01 | |